88 lines
3.2 KiB
Modula-2
88 lines
3.2 KiB
Modula-2
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Bootstrap: docker
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From: ubuntu:16.04
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%help
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This is a test container.
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%files
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../../TomoATT /opt/TomoATT
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%environment
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export PKG_DIR=/opt/packages
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export SINGULARITY_PKG_DIR=$PKG_DIR
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export SINGULARITYENV_APPEND_PATH=$PKG_DIR/bin
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export SINGULAIRTYENV_APPEND_LD_LIBRARY_PATH=$PKG_DIR/lib
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export PATH=$PKG_DIR/bin:$PATH
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export PATH=/opt/TomoATT/build/bin:$PATH
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export LD_LIBRARY_PATH=$PKG_DIR/lib:$LD_LIBRARY_PATH
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%post
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echo "Installing required packages..."
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apt-get update && apt-get install -y wget git bash gcc gfortran g++ make file apt-transport-https ca-certificates
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# install gcc-9 and g++-9
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apt-get install -y software-properties-common && \
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add-apt-repository ppa:ubuntu-toolchain-r/test -y && \
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apt-get update -y && \
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apt-get install -y gcc-9 g++-9 && \
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update-alternatives --install /usr/bin/gcc gcc /usr/bin/gcc-9 60 --slave /usr/bin/g++ g++ /usr/bin/g++-9
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# install latest cmake
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apt update && \
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apt install -y software-properties-common lsb-release && \
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apt clean all && \
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wget -O - https://apt.kitware.com/keys/kitware-archive-latest.asc 2>/dev/null | gpg --dearmor - | tee /etc/apt/trusted.gpg.d/kitware.gpg >/dev/null && \
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apt-add-repository "deb https://apt.kitware.com/ubuntu/ $(lsb_release -cs) main" && \
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apt update && \
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apt install kitware-archive-keyring && \
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rm /etc/apt/trusted.gpg.d/kitware.gpg && \
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apt-key adv --keyserver keyserver.ubuntu.com --recv-keys 6AF7F09730B3F0A4 && \
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apt update && \
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apt install -y cmake && \
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apt clean all
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export PKG_DIR=/opt/packages
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export NPROC=4
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echo "Installing Open MPI"
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export OMPI_VERSOIN_MAJOR=3.0
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export OMPI_VERSION_FULL=3.0.1
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export OMPI_URL="https://download.open-mpi.org/release/open-mpi/v$OMPI_VERSOIN_MAJOR/openmpi-$OMPI_VERSION_FULL.tar.gz"
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mkdir -p /tmp/ompi
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mkdir -p /opt
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# Download
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cd /tmp/ompi && wget -O openmpi-$OMPI_VERSION_FULL.tar.gz $OMPI_URL && tar -xvf openmpi-$OMPI_VERSION_FULL.tar.gz
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# Compile and install
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cd /tmp/ompi/openmpi-$OMPI_VERSION_FULL && ./configure --prefix=$PKG_DIR && make -j$NPROC && make install
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# Set env variables so we can compile our application
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export PATH=$PKG_DIR/bin:$PATH
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export LD_LIBRARY_PATH=$PKG_DIR/lib:$LD_LIBRARY_PATH
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export MANPATH=$PKG_DIR/share/man:$MANPATH
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echo "openmpi installed."
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echo "Compiling hdf5"
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export HDF5_VERSION_MAJOR=1.13
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export HDF5_VERSION_FULL=1.13.2
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export HDF5_URL="https://support.hdfgroup.org/ftp/HDF5/releases/hdf5-$HDF5_VERSION_MAJOR/hdf5-$HDF5_VERSION_FULL/src/hdf5-$HDF5_VERSION_FULL.tar.gz"
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mkdir -p /tmp/hdf5
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cd /tmp/hdf5 && wget -O hdf5-$HDF5_VERSION_FULL.tar.gz $HDF5_URL && tar -xvf hdf5-$HDF5_VERSION_FULL.tar.gz && cd hdf5-$HDF5_VERSION_FULL
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tar -xvf hdf5-$HDF5_VERSION_FULL.tar.gz && cd hdf5-$HDF5_VERSION_FULL
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CC=mpicc CXX=mpic++ ./configure --enable-parallel --enable-unsupported --enable-shared --enable-cxx --prefix=$PKG_DIR && make -j$NPROC && make install
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echo "hdf5 installed."
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cd /opt/TomoATT
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mkdir -p build && cd build && rm -rf ./*
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cmake .. -DCMAKE_PREFIX_PATH=$PKG_DIR
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make -j$NPROC
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echo "TomoATT installed."
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%labels
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Maintainer MasaruNagaso
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Version v1.0
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